6MTJ

Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-378806 in Complex with Human Antibodies 3H109L and 35O22 at 2.9 Angstrom


Sequence Similarity Clusters for the Entities in PDB 6MTJ

Entity #1 | Chains: B
Envelope glycoprotein gp160 protein, length: 153 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 40 550
95 % 1 58 405 Flexibility: Low
Max RMSD: 4.5, Avg RMSD: 1.5
PDBFlex
90 % 1 59 419
70 % 1 81 310
50 % 1 81 369
40 % 1 81 390
30 % 1 81 399
Entity #2 | Chains: D
35O22 scFv heavy chain portion protein, length: 134 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 6 17069
95 % 1 8 11927 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.4
PDBFlex
90 % 1 8 11773
70 % 1 8 11189
50 % 418 808 6
40 % 418 811 6
30 % 625 1213 6
Entity #3 | Chains: E
35O22 scFv light chain portion protein, length: 114 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 8 9724
95 % 1 8 11106 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 1 8 10088
70 % 1 8 9759
50 % 197 379 17
40 % 203 386 23
30 % 626 1213 6
Entity #4 | Chains: G
Envelope glycoprotein gp160 protein, length: 481 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 10 6286
95 % 1 64 328 Flexibility: Low
Max RMSD: 2.5, Avg RMSD: 1.3
PDBFlex
90 % 1 64 342
70 % 1 91 276
50 % 1 91 327
40 % 1 91 340
30 % 1 91 355
Entity #5 | Chains: H
3H109L Fab heavy chain protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 13 5560
95 % 1 13 6208 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 4 30 1629
70 % 1459 2903 1
50 % 1539 3048 1
40 % 1539 3048 1
30 % 3056 6095 1
Entity #6 | Chains: L
3H109L Fab light chain protein, length: 217 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 11 7127
95 % 2 29 1849 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 3 30 1773
70 % 282 601 8
50 % 1497 3003 2
40 % 1497 3003 2
30 % 3057 6095 1

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures